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multiscale
lammps
Commits
dc1d93a4
Commit
dc1d93a4
authored
8 years ago
by
Axel Kohlmeyer
Browse files
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Plain Diff
some more whitespace cleanup
parent
66eb9c24
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Changes
1
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1 changed file
src/USER-MISC/pair_zhou.cpp
+44
-41
44 additions, 41 deletions
src/USER-MISC/pair_zhou.cpp
with
44 additions
and
41 deletions
src/USER-MISC/pair_zhou.cpp
+
44
−
41
View file @
dc1d93a4
...
@@ -5,7 +5,7 @@
...
@@ -5,7 +5,7 @@
Copyright (2003) Sandia Corporation. Under the terms of Contract
Copyright (2003) Sandia Corporation. Under the terms of Contract
DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains
DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains
certain rights in this software. This software is distributed under
certain rights in this software. This software is distributed under
the GNU General Public License.
the GNU General Public License.
See the README file in the top-level LAMMPS directory.
See the README file in the top-level LAMMPS directory.
...
@@ -73,7 +73,7 @@ void PairZhou::compute(int eflag, int vflag)
...
@@ -73,7 +73,7 @@ void PairZhou::compute(int eflag, int vflag)
ilist
=
list
->
ilist
;
ilist
=
list
->
ilist
;
numneigh
=
list
->
numneigh
;
numneigh
=
list
->
numneigh
;
firstneigh
=
list
->
firstneigh
;
firstneigh
=
list
->
firstneigh
;
// loop over neighbors of my atoms
// loop over neighbors of my atoms
for
(
ii
=
0
;
ii
<
inum
;
ii
++
)
{
for
(
ii
=
0
;
ii
<
inum
;
ii
++
)
{
...
@@ -99,33 +99,34 @@ void PairZhou::compute(int eflag, int vflag)
...
@@ -99,33 +99,34 @@ void PairZhou::compute(int eflag, int vflag)
if
(
rsq
<
cutsq
[
itype
][
jtype
])
{
if
(
rsq
<
cutsq
[
itype
][
jtype
])
{
r2inv
=
1.0
/
rsq
;
r2inv
=
1.0
/
rsq
;
r6inv
=
r2inv
*
r2inv
*
r2inv
;
r6inv
=
r2inv
*
r2inv
*
r2inv
;
r
=
sqrt
(
rsq
);
r
=
sqrt
(
rsq
);
dr
=
r
-
r0
[
itype
][
jtype
];
dr
=
r
-
r0
[
itype
][
jtype
];
dexp
=
exp
(
-
alpha
[
itype
][
jtype
]
*
dr
);
dexp
=
exp
(
-
alpha
[
itype
][
jtype
]
*
dr
);
ddexp
=
exp
(
-
dscale
*
(
r
/
rr
[
itype
][
jtype
]
-
1.0
));
ddexp
=
exp
(
-
dscale
*
(
r
/
rr
[
itype
][
jtype
]
-
1.0
));
invexp
=
1.0
/
(
1
+
ddexp
);
invexp
=
1.0
/
(
1
+
ddexp
);
fpair
=
morse1
[
itype
][
jtype
]
*
(
dexp
*
dexp
-
dexp
)
/
r
;
fpair
=
morse1
[
itype
][
jtype
]
*
(
dexp
*
dexp
-
dexp
)
/
r
;
fpair
-=
sscale
*
c
[
itype
][
jtype
]
*
(
invexp
*
invexp
*
ddexp
*
(
-
dscale
/
rr
[
itype
][
jtype
])
*
r6inv
)
/
r
;
fpair
-=
sscale
*
c
[
itype
][
jtype
]
*
(
invexp
*
invexp
*
ddexp
*
(
-
dscale
/
rr
[
itype
][
jtype
])
*
r6inv
)
/
r
;
fpair
-=
sscale
*
c
[
itype
][
jtype
]
*
(
6.0
*
invexp
*
r6inv
*
r2inv
);
fpair
-=
sscale
*
c
[
itype
][
jtype
]
*
(
6.0
*
invexp
*
r6inv
*
r2inv
);
fpair
*=
factor_lj
;
fpair
*=
factor_lj
;
f
[
i
][
0
]
+=
delx
*
fpair
;
f
[
i
][
0
]
+=
delx
*
fpair
;
f
[
i
][
1
]
+=
dely
*
fpair
;
f
[
i
][
1
]
+=
dely
*
fpair
;
f
[
i
][
2
]
+=
delz
*
fpair
;
f
[
i
][
2
]
+=
delz
*
fpair
;
if
(
newton_pair
||
j
<
nlocal
)
{
if
(
newton_pair
||
j
<
nlocal
)
{
f
[
j
][
0
]
-=
delx
*
fpair
;
f
[
j
][
0
]
-=
delx
*
fpair
;
f
[
j
][
1
]
-=
dely
*
fpair
;
f
[
j
][
1
]
-=
dely
*
fpair
;
f
[
j
][
2
]
-=
delz
*
fpair
;
f
[
j
][
2
]
-=
delz
*
fpair
;
}
}
if
(
eflag
)
{
if
(
eflag
)
{
evdwl
=
d0
[
itype
][
jtype
]
*
(
dexp
*
dexp
-
2.0
*
dexp
)
-
evdwl
=
d0
[
itype
][
jtype
]
*
(
dexp
*
dexp
-
2.0
*
dexp
)
-
sscale
*
c
[
itype
][
jtype
]
*
r6inv
*
invexp
-
offset
[
itype
][
jtype
];
sscale
*
c
[
itype
][
jtype
]
*
r6inv
*
invexp
-
offset
[
itype
][
jtype
];
evdwl
*=
factor_lj
;
evdwl
*=
factor_lj
;
}
}
if
(
evflag
)
ev_tally
(
i
,
j
,
nlocal
,
newton_pair
,
if
(
evflag
)
ev_tally
(
i
,
j
,
nlocal
,
newton_pair
,
evdwl
,
0.0
,
fpair
,
delx
,
dely
,
delz
);
evdwl
,
0.0
,
fpair
,
delx
,
dely
,
delz
);
}
}
}
}
}
}
...
@@ -134,7 +135,7 @@ void PairZhou::compute(int eflag, int vflag)
...
@@ -134,7 +135,7 @@ void PairZhou::compute(int eflag, int vflag)
}
}
/* ----------------------------------------------------------------------
/* ----------------------------------------------------------------------
allocate all arrays
allocate all arrays
------------------------------------------------------------------------- */
------------------------------------------------------------------------- */
void
PairZhou
::
allocate
()
void
PairZhou
::
allocate
()
...
@@ -160,7 +161,7 @@ void PairZhou::allocate()
...
@@ -160,7 +161,7 @@ void PairZhou::allocate()
}
}
/* ----------------------------------------------------------------------
/* ----------------------------------------------------------------------
global settings
global settings
------------------------------------------------------------------------- */
------------------------------------------------------------------------- */
void
PairZhou
::
settings
(
int
narg
,
char
**
arg
)
void
PairZhou
::
settings
(
int
narg
,
char
**
arg
)
...
@@ -177,7 +178,7 @@ void PairZhou::settings(int narg, char **arg)
...
@@ -177,7 +178,7 @@ void PairZhou::settings(int narg, char **arg)
int
i
,
j
;
int
i
,
j
;
for
(
i
=
1
;
i
<=
atom
->
ntypes
;
i
++
)
for
(
i
=
1
;
i
<=
atom
->
ntypes
;
i
++
)
for
(
j
=
i
+
1
;
j
<=
atom
->
ntypes
;
j
++
)
for
(
j
=
i
+
1
;
j
<=
atom
->
ntypes
;
j
++
)
if
(
setflag
[
i
][
j
])
cut
[
i
][
j
]
=
cut_global
;
if
(
setflag
[
i
][
j
])
cut
[
i
][
j
]
=
cut_global
;
}
}
}
}
...
@@ -187,7 +188,9 @@ void PairZhou::settings(int narg, char **arg)
...
@@ -187,7 +188,9 @@ void PairZhou::settings(int narg, char **arg)
void
PairZhou
::
coeff
(
int
narg
,
char
**
arg
)
void
PairZhou
::
coeff
(
int
narg
,
char
**
arg
)
{
{
if
(
narg
<
7
||
narg
>
8
)
error
->
all
(
FLERR
,
"Incorrect args for pair coefficients"
);
if
(
narg
<
7
||
narg
>
8
)
error
->
all
(
FLERR
,
"Incorrect args for pair coefficients"
);
if
(
!
allocated
)
allocate
();
if
(
!
allocated
)
allocate
();
int
ilo
,
ihi
,
jlo
,
jhi
;
int
ilo
,
ihi
,
jlo
,
jhi
;
...
@@ -230,7 +233,7 @@ double PairZhou::init_one(int i, int j)
...
@@ -230,7 +233,7 @@ double PairZhou::init_one(int i, int j)
if
(
setflag
[
i
][
j
]
==
0
)
error
->
all
(
FLERR
,
"All pair coeffs are not set"
);
if
(
setflag
[
i
][
j
]
==
0
)
error
->
all
(
FLERR
,
"All pair coeffs are not set"
);
morse1
[
i
][
j
]
=
2.0
*
d0
[
i
][
j
]
*
alpha
[
i
][
j
];
morse1
[
i
][
j
]
=
2.0
*
d0
[
i
][
j
]
*
alpha
[
i
][
j
];
if
(
offset_flag
)
{
if
(
offset_flag
)
{
double
alpha_dr
=
-
alpha
[
i
][
j
]
*
(
cut
[
i
][
j
]
-
r0
[
i
][
j
]);
double
alpha_dr
=
-
alpha
[
i
][
j
]
*
(
cut
[
i
][
j
]
-
r0
[
i
][
j
]);
offset
[
i
][
j
]
=
d0
[
i
][
j
]
*
(
exp
(
2.0
*
alpha_dr
)
-
2.0
*
exp
(
alpha_dr
));
offset
[
i
][
j
]
=
d0
[
i
][
j
]
*
(
exp
(
2.0
*
alpha_dr
)
-
2.0
*
exp
(
alpha_dr
));
...
@@ -260,12 +263,12 @@ void PairZhou::write_restart(FILE *fp)
...
@@ -260,12 +263,12 @@ void PairZhou::write_restart(FILE *fp)
for
(
j
=
i
;
j
<=
atom
->
ntypes
;
j
++
)
{
for
(
j
=
i
;
j
<=
atom
->
ntypes
;
j
++
)
{
fwrite
(
&
setflag
[
i
][
j
],
sizeof
(
int
),
1
,
fp
);
fwrite
(
&
setflag
[
i
][
j
],
sizeof
(
int
),
1
,
fp
);
if
(
setflag
[
i
][
j
])
{
if
(
setflag
[
i
][
j
])
{
fwrite
(
&
d0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
d0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
alpha
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
alpha
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
r0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
r0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
c
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
c
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
rr
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
rr
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
cut
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fwrite
(
&
cut
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
}
}
}
}
}
}
...
@@ -287,20 +290,20 @@ void PairZhou::read_restart(FILE *fp)
...
@@ -287,20 +290,20 @@ void PairZhou::read_restart(FILE *fp)
if
(
me
==
0
)
fread
(
&
setflag
[
i
][
j
],
sizeof
(
int
),
1
,
fp
);
if
(
me
==
0
)
fread
(
&
setflag
[
i
][
j
],
sizeof
(
int
),
1
,
fp
);
MPI_Bcast
(
&
setflag
[
i
][
j
],
1
,
MPI_INT
,
0
,
world
);
MPI_Bcast
(
&
setflag
[
i
][
j
],
1
,
MPI_INT
,
0
,
world
);
if
(
setflag
[
i
][
j
])
{
if
(
setflag
[
i
][
j
])
{
if
(
me
==
0
)
{
if
(
me
==
0
)
{
fread
(
&
d0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
d0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
alpha
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
alpha
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
r0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
r0
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
c
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
c
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
rr
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
rr
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
cut
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
fread
(
&
cut
[
i
][
j
],
sizeof
(
double
),
1
,
fp
);
}
}
MPI_Bcast
(
&
d0
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
d0
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
alpha
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
alpha
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
r0
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
r0
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
c
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
c
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
rr
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
rr
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
cut
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
MPI_Bcast
(
&
cut
[
i
][
j
],
1
,
MPI_DOUBLE
,
0
,
world
);
}
}
}
}
}
}
...
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